Timeline


and

04/10/09:

15:04 Changeset [4993] by melissa
TiffTools.writeImage now saves the LUT associated with the image being …
11:26 Changeset [4992] by curtis
Update URL of VisAD javadocs.
10:02 Changeset [4991] by melissa
Added logic to TiffReader that will attempt to read as much pixel data as …

04/09/09:

16:50 Changeset [4990] by curtis
When debugging, print a warning if next IFD offset is invalid.
16:21 Changeset [4989] by curtis
Respect "insane" debug setting in TIFF debugging output.
16:17 Changeset [4988] by curtis
Use FormatHandler debug flag to decide whether to dump TIFF debugging …
11:29 Changeset [4987] by melissa
Fixed Z/T axis swapping in ImagePro files.

04/08/09:

17:29 Ticket #376 (Add support for writing lossless JPEGs) created by melissa
Lossless JPEG allows for up to 16 bits per pixel; we should update …
17:00 Changeset [4986] by melissa
Some fixes for channel/series size calculation.

04/07/09:

20:46 Ticket #374 (Cannot construct int8 BufferedImages) closed by melissa
fixed: (In [4985]) Added SignedByteBuffer for use in constructing BufferedImages …
20:46 Changeset [4985] by melissa
Added SignedByteBuffer for use in constructing BufferedImages of type …
11:55 Changeset [4984] by melissa
Populate Plate.WellOriginX and Plate.WellOriginY.
10:48 Ticket #333 (Decide how to handle XZ and XT scans) closed by melissa
fixed: (In [4983]) Swap Y and Z if an XZ scan is encountered, or Y and T if an XT …
10:48 Changeset [4983] by melissa
Swap Y and Z if an XZ scan is encountered, or Y and T if an XT scan is …
09:21 Changeset [4982] by melissa
Make sure that the .mdb file is not a directory.
08:48 Changeset [4981] by melissa
Changed capitalization of getters/setters for Thumbnail.href.

04/06/09:

14:50 Changeset [4980] by melissa
* Added version constants to loci.formats.FormatTools, so that the version …
14:43 Changeset [4979] by curtis
Call close when finished reading the image planes.
13:25 Ticket #231 (Improve bfconvert) closed by melissa
fixed: (In [4978]) Allow bfconvert to save to multiple files; run bfconvert with …
13:25 Changeset [4978] by melissa
Allow bfconvert to save to multiple files; run bfconvert with no options …
13:17 Changeset [4977] by melissa
Fixed problem with writing images to an existing TIFF file.
10:25 Changeset [4976] by melissa
Throw a more informative exception if constituent TIFF/STK files are …
09:50 Changeset [4975] by melissa
Set Objective.Immersion to "Unknown" if the value in the file is null or …
09:49 Changeset [4974] by melissa
Fixed how SizeC is calculated if an AXIS_4 or AXIS_9 note is found.
08:07 Changeset [4973] by melissa
- Added new SPW attributes to MetadataStore/MetadataRetrieve: * …

04/03/09:

17:20 Changeset [4972] by curtis
Update Windows compilation instructions.
14:50 Changeset [4971] by melissa
Fixed series count calculation for datasets that explicitly exclude …
07:48 Changeset [4970] by melissa
Prevent LeicaHandler from populating more LogicalChannels than there are …

04/02/09:

17:07 Changeset [4969] by melissa
Prevent ArrayIndexOutOfBoundsException if there are not enough exposure …
17:01 Changeset [4968] by melissa
If the number of channels is different for each timepoint, then split each …
09:41 Changeset [4967] by melissa
The first letter of each ROI attribute is now capitalized in the …

04/01/09:

14:40 Changeset [4966] by melissa
The ImageJ plugin can now (optionally) display the ROIs stored in a file. …
13:59 Changeset [4965] by melissa
Most ROI types are now parsed from FV1000 files. See #315.

03/31/09:

19:46 Changeset [4964] by curtis
Add _sp suffix for multiple stage positions.
19:45 Changeset [4963] by curtis
Switched licenses from GPL v3 or later to GPL v2 or later.
19:16 Changeset [4962] by curtis
Fix path separator issue on Windows.
19:13 Changeset [4961] by curtis
Update compilation instructions for bf-cpp.
19:12 Changeset [4960] by curtis
Fix compile errors on Windows, and add Windows compilation instructions.
18:59 Changeset [4959] by curtis
Copy JAR files into the most common Windows build directories.
18:14 Changeset [4958] by curtis
Use semicolon for path separator on Windows. Now showinf works on Windows.
15:58 Changeset [4957] by melissa
Never populate more than getEffectiveSizeC() LogicalChannels.
15:44 Ticket #369 (Some tiled ZVIs throw an exception) closed by melissa
fixed: (In [4956]) Fixed various problems with tiled ZVI images. Closes #369.
15:43 Changeset [4956] by melissa
Fixed various problems with tiled ZVI images. Closes #369.
13:50 Changeset [4955] by curtis
Export symbols to Windows LIB file for Bio-Formats C++ proxies.

03/30/09:

16:57 Changeset [4954] by curtis
Jace and Bio-Formats now link on Windows, but the examples still don't.
11:56 Ticket #342 (Add support for reading/writing multi-page EPS files) closed by melissa
invalid: From the EPS specification (specs/eps/eps.pdf): "An encapsulated …
11:40 Changeset [4953] by melissa
Switched licenses from GPL v3 or later to GPL v2 or later.
10:59 Ticket #363 (AWTImageTools.openImage misrepresents negative pixel values for int16) closed by melissa
fixed: Signed 8-bit data (FormatTools.INT8) is not supported - see …
10:58 Ticket #375 (Cannot construct uint32 BufferedImages) created by melissa
[…] produces the following exception: […]
10:39 Ticket #374 (Cannot construct int8 BufferedImages) created by melissa
[…] produces the following exception: […]
10:10 Changeset [4952] by melissa
AWTImageTools.openImage now correctly represents signed 16-bit data.
08:51 Changeset [4951] by melissa
Fixed how field count is determined and updated openBytes to account for …

03/26/09:

14:56 Changeset [4950] by curtis
Update bf-cpp documentation and build system infrastructure for Windows. …
14:09 Ticket #366 (LSM reader should accept files with .mdb extension) closed by melissa
fixed: (In [4949]) * Moved getPixelType(Hashtable ifd) from MinimalTiffReader to …
14:09 Changeset [4949] by melissa
* Moved getPixelType(Hashtable ifd) from MinimalTiffReader to TiffTools. * …
13:03 Changeset [4948] by melissa
Commented out call to System.out.println.
11:43 Changeset [4947] by melissa
Fixed some .mdb parsing bugs.
09:51 Changeset [4946] by melissa
Tweaked "unsupported pixel type" error message.
09:05 Ticket #365 (Error parsing MDB database files: exception in mdb_fetch_row) closed by melissa
fixed: (In [4945]) Eliminated exceptions when parsing memo and OLE fields from …
09:05 Changeset [4945] by melissa
Eliminated exceptions when parsing memo and OLE fields from .mdb files. …

03/25/09:

14:12 Changeset [4944] by melissa
Added support for .cxd files that contain embedded TIFFs instead of raw …
13:03 Changeset [4943] by melissa
Wrap the DataInputStream in a BufferedInputStream to reduce plane access …
12:29 Ticket #371 (ICS reader does not accurately report signed 16-bit data) closed by melissa
fixed: (In [4942]) Removed signedness hack for Huygens ICS files; closes #371.
12:29 Changeset [4942] by melissa
Removed signedness hack for Huygens ICS files; closes #371.
12:14 Ticket #373 (Writers do not preserve color lookup tables) created by melissa
The APNG and TIFF writers should detect and preserve lookup tables …
10:49 Ticket #370 (Add support for lossless-compressed ZVIs) closed by melissa
fixed: (In [4941]) Added support for Zlib-compressed ZVI images. Closes #370.
10:49 Changeset [4941] by melissa
Added support for Zlib-compressed ZVI images. Closes #370.

03/24/09:

13:51 Changeset [4940] by curtis
* Fix problem constructing OME-XML root node when xmlns is specified with …
11:39 Ticket #372 (MetamorphReader does not accurately search for constituent files) closed by melissa
fixed: (In [4939]) Improved search for STK files, and added a better error …
11:39 Changeset [4939] by melissa
Improved search for STK files, and added a better error message if one is …
09:58 Changeset [4938] by melissa
Fixed problem with files where the actual number of images is greater than …

03/23/09:

10:32 Ticket #350 (Add support for IPLab-Mac file format) closed by melissa
fixed: (In [4937]) Parse metadata from the XML block at the end of the file. …
10:32 Changeset [4937] by melissa
Parse metadata from the XML block at the end of the file. Closes #350.
09:36 Changeset [4936] by melissa
Fixed DelegateReader.openBytes(int, byte[], int, int, int, int) to …
09:27 Changeset [4935] by melissa
isThisType(RandomAccessStream) now checks for a magic number instead of …
08:42 Changeset [4934] by melissa
Check that the plane count is divisible by 3 before assuming that files …
08:31 Changeset [4933] by melissa
Fixed another NPE when parsing deconvolution log files.
08:09 Ticket #372 (MetamorphReader does not accurately search for constituent files) created by melissa
loci.formats.in.MetamorphReader:180 needs to be modified to more …

03/20/09:

15:07 Changeset [4932] by melissa
Removed debugging statement.
15:07 Ticket #322 (Eliminate native library dependencies) closed by melissa
fixed: (In [4931]) * Initial version of lossless JPEG decoder. Closes #322. * …
15:07 Changeset [4931] by melissa
* Initial version of lossless JPEG decoder. Closes #322. * Moved Huffman …
13:27 Changeset [4930] by melissa
Fixed problems with InCell datasets that have a different number of TIFF …
10:42 Changeset [4929] by melissa
Fixed how the number of row padding bytes is calculated.

03/19/09:

09:39 Changeset [4928] by melissa
Fixed NPE when parsing deconvolution log file.

03/18/09:

14:55 Changeset [4927] by melissa
Fixed strip offset calculation for STK files that don't contain enough …
11:05 Changeset [4926] by melissa
Added reader for Cellomics C01 files.
09:19 Ticket #371 (ICS reader does not accurately report signed 16-bit data) created by melissa
ICSReader currently contains logic that treats all 16-bit images produced …
08:16 Ticket #370 (Add support for lossless-compressed ZVIs) created by melissa
The pixel data in ZVI files can be compressed losslessly - a brief test …
08:12 Ticket #369 (Some tiled ZVIs throw an exception) created by melissa
See : * zeiss-zvi/markus/Branchiostoma_6x12_MosaiX_Tiles_color.zvi * …

03/17/09:

13:57 Changeset [4925] by melissa
Call MetadataTools.populatePixels after the CoreMetadata object is …

03/16/09:

14:31 Ticket #368 (Cannot read converted OME-TIFF files with JPEG-2000 compression) closed by melissa
fixed: (In [4924]) Only double StripByteCounts values if the strips are …
14:31 Changeset [4924] by melissa
Only double StripByteCounts values if the strips are compressed with LZW. …
13:32 Changeset [4923] by melissa
Added untested logic for detecting multi-channel data.
13:18 Ticket #367 (NativeND2Reader does not read Z steps correctly) closed by melissa
fixed: (In [4922]) Parse Z step from the 'dZStep' value instead of the 'dAspect' …
13:18 Changeset [4922] by melissa
Parse Z step from the 'dZStep' value instead of the 'dAspect' value. Fixes …
13:17 Changeset [4921] by melissa
Fixed MetadataStore and metadata hashtable propagation.
12:25 Changeset [4920] by melissa
Eliminated deprecation warnings in JAI component.
11:57 Ticket #368 (Cannot read converted OME-TIFF files with JPEG-2000 compression) created by melissa
OME-TIFF files written with JPEG-2000 compression cannot be read. To …
11:34 Ticket #354 (Bio-Formats writers should use the loci.common I/O classes) closed by melissa
fixed: (In [4919]) * Changed TiffTools.overwriteIFDValue to accept a String …
11:34 Changeset [4919] by melissa
* Changed TiffTools.overwriteIFDValue to accept a String filename instead …
11:30 Changeset [4918] by melissa
Fixed how FormatWriter.saveBytes calculates the number of channels per …
11:21 Changeset [4917] by melissa
Fixed several problems with writing to an RABytes.
09:46 Ticket #360 (J2K files not supported) closed by melissa
fixed: (In [4916]) Added support for J2K files. Closes #360.
09:46 Changeset [4916] by melissa
Added support for J2K files. Closes #360.
09:10 Ticket #361 (Move JPEG-2000 logic into its' own reader) closed by melissa
fixed: (In [4915]) Added separate reader for JPEG-2000 files. Closes #361.
09:10 Changeset [4915] by melissa
Added separate reader for JPEG-2000 files. Closes #361.
08:20 Changeset [4914] by melissa
Added 'signed' field to CodecOptions and eliminated deprecation warning in …

03/13/09:

14:04 Changeset [4913] by melissa
Added loci.common.RandomAccessOutputStream (analogous to …
13:07 Changeset [4912] by melissa
Changed 'QTReader' to 'NativeQTReader' and 'ND2Reader' to …
11:11 Ticket #367 (NativeND2Reader does not read Z steps correctly) created by melissa
data/nd2/jonas/header_test1.nd2 should have Dimensions.PhysicalSizeZ set …
10:35 Changeset [4911] by melissa
Removed debugging statement from JPEGCodec.

03/12/09:

18:08 Changeset [4910] by curtis
Fix references to ome-xml.jar and other JARs.
14:49 Ticket #366 (LSM reader should accept files with .mdb extension) created by curtis
Some LSM datasets have an MDB companion database containing additional …
14:44 Ticket #365 (Error parsing MDB database files: exception in mdb_fetch_row) created by curtis
When parsing MDB files, several exceptions are thrown: […] The …
14:28 Changeset [4909] by curtis
Use LogTools to print exceptions in MDB parser, and only when debug is …
14:27 Changeset [4908] by melissa
Updated metadata support documentation to account for renamed ND2 and …
11:03 Ticket #362 (Clean up delegation to legacy readers) closed by melissa
fixed: (In [4907]) Moved native/legacy reader delegation logic to …
11:03 Changeset [4907] by melissa
Moved native/legacy reader delegation logic to loci.formats.DelegateReader …
Note: See TracTimeline for information about the timeline view.